start chisurf instance from python script

[NicolaasvanderVoort]

Is your feature request related to a problem? Please describe.
For the CD95 project we are doing many TCSPC fits, similar to the TGR5 project. The option to run scripts in Chisurf is already quite helpful. Is it also possible to create a Chisurf instance from a python interpreter and do fitting there? In this way chisurf TCSPC fitting can be embedded in whatever analysis other analysis is undertaken.
We do live-cell data, so we generate a lot of data for which I'd like to automate the analysis.

Describe the solution you'd like

• which dir must be added to $PYTHONPATH
• how to import the chisurf package
• how to initialize a Chisurf instance
  From there the combination command line + cs gui should enable scripting Donor only calibrated Donor Acceptor fits.

Describe alternatives you've considered
I have a few scripts for running batch fits in Chisurf. It works ok, but it's a bit messy and I'd like to automate human clicking as far as routine analysis is concerned. If it works nicely, it can be modularly implemented wherever TCSPC fitting is needed.

Additional context
Chisurf running py2.7 and Jupyter QtConsole 4.2.1 (I couldn't find the software version).
Is pain to be expected from running py2.7 chisurf in 3.7 interpreter?

Many thanks,

[tpeulen]

This is a great idea. Using and chisurf in other software is possible. Take a look at the following test:

https://github.com/Fluorescence-Tools/chisurf/blob/master/test/test_fit_tcspc.py

I already migrated the master branch of chisurf to python 3. Since the last release, there were many changes. This and the lack of testing by (qualified) testers is the main reason I did not release a new version.

[NicolaasvanderVoort]

Sure I can test the new version of chisurf.

I cloned the master repo and ran:
pwd :
~/chisurf
python setup.py
I got asked to install mako and pybind11 (I thought I had pybind11 installed, but whatever)

Next, in python shell:

import chisurf.models
ModuleNotFoundError: No module named 'slugify'
pip install slugify
ERROR: chisurf 19.9.22 requires deprecation, which is not installed.
ERROR: chisurf 19.9.22 requires emcee, which is not installed.
ERROR: chisurf 19.9.22 requires pyopencl, which is not installed.
ERROR: chisurf 19.9.22 requires PyQt5, which is not installed.
ERROR: chisurf 19.9.22 requires pyqtgraph, which is not installed.
ERROR: chisurf 19.9.22 requires python-docx, which is not installed.
ERROR: chisurf 19.9.22 requires sip, which is not installed.
pip install deprecation emcee pyopencl PyQt5 pyqtgraph python-docx sip

Then I tried importing again:
import chisurf.models

File "C:\ProgramData\Anaconda3\lib\site-packages\chisurf-19.9.22-py3.7-win-amd64.egg\chisurf\fio\photons.py", line 34, in
import tttrlib

ModuleNotFoundError: No module named 'tttrlib'

I checked and there is a file called tttr in ~\chisurf\chisurf\fio, but not tttrlib.

Untill sofar,